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(-) Description

Title :  CRYSTAL STRUCTURE OF TETR FAMILY REPRESSOR M. TUBERCULOSIS ETHR
 
Authors :  L. G. Dover, P. E. Corsino, I. R. Daniels, S. L. Cocklin, V. Tatituri, G. S K. Futterer
Date :  03 May 04  (Deposition) - 27 Jul 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Helix-Turn-Helix, Tetr Family, Dimer, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. G. Dover, P. E. Corsino, I. R. Daniels, S. L. Cocklin, V. Tatituri, G. S. Besra, K. Futterer
Crystal Structure Of The Tetr/Camr Family Repressor Mycobacterium Tuberculosis Ethr Implicated In Ethionamide Resistance.
J. Mol. Biol. V. 340 1095 2004
PubMed-ID: 15236969  |  Reference-DOI: 10.1016/J.JMB.2004.06.003

(-) Compounds

Molecule 1 - ETHR REPRESSOR
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET23B
    Expression System Strain: C41(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Strain: H37RV

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1DIO2Ligand/Ion1,4-DIETHYLENE DIOXIDE
2GOL1Ligand/IonGLYCEROL
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1DIO4Ligand/Ion1,4-DIETHYLENE DIOXIDE
2GOL2Ligand/IonGLYCEROL

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:106 , ILE A:107 , PHE A:110 , THR A:149BINDING SITE FOR RESIDUE DIO A 300
2AC2SOFTWAREPHE A:110 , TRP A:138 , MET A:142 , LEU A:183 , PHE A:184BINDING SITE FOR RESIDUE DIO A 301
3AC3SOFTWARETHR A:60 , PHE A:63 , ALA A:86 , ASN A:108 , VAL A:109 , GLU A:112BINDING SITE FOR RESIDUE GOL A 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1T56)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Gln A:191 -Pro A:192

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1T56)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_TETR_2PS50977 TetR-type HTH domain profile.ETHR_MYCTO23-83  1A:23-83
ETHR_MYCTU23-83  1A:23-83
Biological Unit 1 (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1HTH_TETR_2PS50977 TetR-type HTH domain profile.ETHR_MYCTO23-83  2A:23-83
ETHR_MYCTU23-83  2A:23-83

(-) Exons   (0, 0)

(no "Exon" information available for 1T56)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:193
 aligned with ETHR_MYCTO | P9WMC0 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:193
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211   
           ETHR_MYCTO    22 GDDRELAILATAENLLEDRPLADISVDDLAKGAGISRPTFYFYFPSKEAVLLTLLDRVVNQADMALQTLAENPADTDRENMWRTGINVFFETFGSHKAVTRAGQAARATSVEVAELWSTFMQKWIAYTAAVIDAERDRGAAPRTLPAHELATALNLMNERTLFASFAGEQPSVPEARVLDTLVHIWVTSIYGE 214
               SCOP domains d1t56a1 A:22-94 Ethr repressor                                           d1t56a2 A:95-214 Ethr repressor                                                                                          SCOP domains
               CATH domains 1t56A01 A:22-67 Homeodomain-like              1t56A02 A:68-214 Tetracycline Repressor, domain 2                                                                                                   CATH domains
               Pfam domains -------TetR_N-1t56A01 A:29-75                         ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -HTH_TETR_2  PDB: A:23-83 UniProt: 23-83                      ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1t56 A  22 GDDRELAILATAENLLEDRPLADISVDDLAKGAGISRPTFYFYFPSKEAVLLTLLDRVVNQADMALQTLAENPADTDRENMWRTGINVFFETFGSHKAVTRAGQAARATSVEVAELWSTFMQKWIAYTAAVIDAERDRGAAPRTLPAHELATALNLMNERTLFASFAGEQPSVPEARVLDTLVHIWVTSIYGE 214
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211   


Chain A from PDB  Type:PROTEIN  Length:193
 aligned with ETHR_MYCTU | P9WMC1 from UniProtKB/Swiss-Prot  Length:216

    Alignment length:193
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211   
           ETHR_MYCTU    22 GDDRELAILATAENLLEDRPLADISVDDLAKGAGISRPTFYFYFPSKEAVLLTLLDRVVNQADMALQTLAENPADTDRENMWRTGINVFFETFGSHKAVTRAGQAARATSVEVAELWSTFMQKWIAYTAAVIDAERDRGAAPRTLPAHELATALNLMNERTLFASFAGEQPSVPEARVLDTLVHIWVTSIYGE 214
               SCOP domains d1t56a1 A:22-94 Ethr repressor                                           d1t56a2 A:95-214 Ethr repressor                                                                                          SCOP domains
               CATH domains 1t56A01 A:22-67 Homeodomain-like              1t56A02 A:68-214 Tetracycline Repressor, domain 2                                                                                                   CATH domains
               Pfam domains -------TetR_N-1t56A01 A:29-75                         ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -HTH_TETR_2  PDB: A:23-83 UniProt: 23-83                      ----------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1t56 A  22 GDDRELAILATAENLLEDRPLADISVDDLAKGAGISRPTFYFYFPSKEAVLLTLLDRVVNQADMALQTLAENPADTDRENMWRTGINVFFETFGSHKAVTRAGQAARATSVEVAELWSTFMQKWIAYTAAVIDAERDRGAAPRTLPAHELATALNLMNERTLFASFAGEQPSVPEARVLDTLVHIWVTSIYGE 214
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (2, 2)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: HTH (544)

(-) Gene Ontology  (7, 10)

Asymmetric Unit(hide GO term definitions)
Chain A   (ETHR_MYCTO | P9WMC0)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

Chain A   (ETHR_MYCTU | P9WMC1)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0045892    negative regulation of transcription, DNA-templated    Any process that stops, prevents, or reduces the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0046677    response to antibiotic    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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  1t56
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        ETHR_MYCTO | P9WMC0: 1u9n 1u9o 3g1l 3g1m 3g1o 3o8g 3o8h 3q0u 3q0v 3q0w 3q3s 3qpl 3sdg 3sfi 3tp0 3tp3 4dw6 4m3b 4m3d 4m3e 4m3f 4m3g 5ezg 5ezh 5f04 5f08 5f0c 5f0f 5f0h 5f1j 5f27 5j3l
        ETHR_MYCTU | P9WMC1: 1u9n 1u9o 3g1l 3g1m 3g1o 3o8g 3o8h 3q0u 3q0v 3q0w 3q3s 3qpl 3sdg 3sfi 3tp0 3tp3 4dw6 4m3b 4m3d 4m3e 4m3f 4m3g 5eyr 5ezg 5ezh 5f04 5f08 5f0c 5f0f 5f0h 5f1j 5f27 5j1r 5j1u 5j1y 5j3l 5mwo 5mxk

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1T56)